Wed, 24 Nov 2021

New package rmangal with initial version 2.1.0
Package: rmangal
Title: 'Mangal' Client
Version: 2.1.0
Description: An interface to the 'Mangal' database - a collection of ecological networks. This package includes functions to work with the 'Mangal RESTful API' methods (<https://mangal-interactions.github.io/mangal-api/>).
URL: https://docs.ropensci.org/rmangal/, https://mangal.io, https://github.com/ropensci/rmangal
BugReports: https://github.com/ropensci/rmangal/issues
License: MIT + file LICENSE
Encoding: UTF-8
Imports: httr (>= 1.3.1), igraph, jsonlite (>= 1.5), memoise, methods, purrr
Suggests: ggraph (>= 2.0.0), knitr, magrittr, mapview, rmarkdown, sf, spelling, taxize, tidygraph, testthat, tibble, USAboundaries, vcr
VignetteBuilder: knitr
X-schema.org-applicationCategory: ecologicalNetworks
NeedsCompilation: no
Packaged: 2021-11-24 17:52:27 UTC; kevcaz
Author: Steve Vissault [aut, ctb] (<https://orcid.org/0000-0002-0866-4376>), Kevin Cazelles [aut, cre] (<https://orcid.org/0000-0001-6619-9874>), Gabriel Bergeron [aut, ctb], Benjamin Mercier [aut, ctb], Clément Violet [aut, ctb], Dominique Gravel [aut], Timothée Poisot [aut], Thomas Lin Pedersen [rev] (<https://orcid.org/0000-0002-5147-4711>), Anna Willoughby [rev] (<https://orcid.org/0000-0002-0504-0605>)
Maintainer: Kevin Cazelles <kevin.cazelles@gmail.com>
Repository: CRAN
Date/Publication: 2021-11-24 19:10:02 UTC

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New package synr with initial version 0.5.1
Package: synr
Title: Explore and Process Synesthesia Consistency Test Data
Version: 0.5.1
Description: Explore synesthesia consistency test data, calculate consistency scores, and classify participant data as valid or invalid.
Depends: R (>= 3.6.0)
Imports: methods (>= 3.6), data.table (>= 1.12), ggplot2 (>= 3.3.0), dbscan (>= 1.1)
Suggests: testthat (>= 2.1.0), dplyr (>= 1.0.0), knitr, rmarkdown, tidyr, plotly
License: MIT + file LICENSE
URL: https://datalowe.github.io/synr/, https://github.com/datalowe/synr
Encoding: UTF-8
LazyData: true
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2021-11-24 14:03:29 UTC; workingman
Author: Lowe Wilsson [aut, cre]
Maintainer: Lowe Wilsson <datalowe@posteo.de>
Repository: CRAN
Date/Publication: 2021-11-24 18:50:02 UTC

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New package r2spss with initial version 0.2.0
Package: r2spss
Title: Format R Output to Look Like SPSS
Version: 0.2.0
Date: 2021-11-24
Description: Create plots and LaTeX tables that look like SPSS output for use in teaching materials. Rather than copying-and-pasting SPSS output into documents, R code that mocks up SPSS output can be integrated directly into dynamic LaTeX documents with tools such as knitr. Functionality includes methods that are typically covered in introductory statistics classes: descriptive statistics, common hypothesis tests, ANOVA, and linear regression, as well as boxplots, histograms, scatterplots, and line plots (including profile plots).
License: GPL (>= 3)
URL: https://github.com/aalfons/r2spss
BugReports: https://github.com/aalfons/r2spss/issues
Depends: R (>= 3.5.0)
Imports: graphics, grDevices, stats, car
Suggests: knitr
LazyLoad: yes
VignetteBuilder: knitr
Author: Andreas Alfons [aut, cre] (<https://orcid.org/0000-0002-2513-3788>)
Maintainer: Andreas Alfons <alfons@ese.eur.nl>
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2021-11-24 14:31:34 UTC; andreas
Repository: CRAN
Date/Publication: 2021-11-24 18:50:05 UTC

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New package ATbounds with initial version 0.1.0
Package: ATbounds
Title: Bounding Treatment Effects by Limited Information Pooling
Version: 0.1.0
Description: Estimation and inference methods for bounding average treatment effects (on the treated) that are valid under an unconfoundedness assumption. The bounds are designed to be robust in challenging situations, for example, when the conditioning variables take on a large number of different values in the observed sample, or when the overlap condition is violated. This robustness is achieved by only using limited "pooling" of information across observations. For more details, see the paper by Lee and Weidner (2021), "Bounding Treatment Effects by Pooling Limited Information across Observations," <arXiv:2111.05243>.
License: GPL-3
Encoding: UTF-8
LazyData: true
Imports: stats, mgcv
Suggests: knitr, rmarkdown, testthat, ggplot2
VignetteBuilder: knitr
Depends: R (>= 2.10)
URL: https://github.com/ATbounds/ATbounds-r/
BugReports: https://github.com/ATbounds/ATbounds-r/issues
NeedsCompilation: no
Packaged: 2021-11-24 15:56:00 UTC; sokbaelee
Author: Sokbae Lee [aut, cre], Martin Weidner [aut]
Maintainer: Sokbae Lee <sl3841@columbia.edu>
Repository: CRAN
Date/Publication: 2021-11-24 19:00:02 UTC

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New package anthroplus with initial version 0.9.0
Package: anthroplus
Title: Computation of the WHO 2007 References for School-Age Children and Adolescents (5 to 19 Years)
Version: 0.9.0
Description: Provides WHO 2007 References for School-age Children and Adolescents (5 to 19 years) (z-scores) with confidence intervals and standard errors around the prevalence estimates, taking into account complex sample designs. More information on the methods is available online: <https://www.who.int/tools/growth-reference-data-for-5to19-years>.
License: GPL (>= 3)
Encoding: UTF-8
Depends: R (>= 3.5.0)
Imports: anthro (>= 1.0.0)
Suggests: testthat (>= 3.0.0), survey
LazyData: true
NeedsCompilation: no
Packaged: 2021-11-24 14:03:26 UTC; dsp
Author: Dirk Schumacher [aut, cre], Elaine Borghi [ctb], Giovanna Gatica-Domínguez [ctb], World Health Organization [cph]
Maintainer: Dirk Schumacher <mail@dirk-schumacher.net>
Repository: CRAN
Date/Publication: 2021-11-24 18:50:09 UTC

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Package embed updated to version 0.1.5 with previous version 0.1.4 dated 2021-01-16

Title: Extra Recipes for Encoding Predictors
Description: Predictors can be converted to one or more numeric representations using a variety of methods. Effect encodings using simple generalized linear models <arXiv:1611.09477> or nonlinear models <arXiv:1604.06737> can be used. There are also functions for dimension reduction and other approaches.
Author: Max Kuhn [aut, cre] (<https://orcid.org/0000-0003-2402-136X>), RStudio [cph]
Maintainer: Max Kuhn <max@rstudio.com>

Diff between embed versions 0.1.4 dated 2021-01-16 and 0.1.5 dated 2021-11-24

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Package RBesT updated to version 1.6-3 with previous version 1.6-2 dated 2021-09-03

Title: R Bayesian Evidence Synthesis Tools
Description: Tool-set to support Bayesian evidence synthesis. This includes meta-analysis, (robust) prior derivation from historical data, operating characteristics and analysis (1 and 2 sample cases). Please refer to Weber et al. (2021) <doi:10.18637/jss.v100.i19> for details on applying this package while Neuenschwander et al. (2010) <doi:10.1177/1740774509356002> and Schmidli et al. (2014) <doi:10.1111/biom.12242> explain details on the methodology.
Author: Novartis Pharma AG [cph], Sebastian Weber [aut, cre], Beat Neuenschwander [ctb], Heinz Schmidli [ctb], Baldur Magnusson [ctb], Yue Li [ctb], Satrajit Roychoudhury [ctb], Trustees of Columbia University [cph] (R/stanmodels.R, configure, configure.win)
Maintainer: Sebastian Weber <sebastian.weber@novartis.com>

Diff between RBesT versions 1.6-2 dated 2021-09-03 and 1.6-3 dated 2021-11-24

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Package extremeIndex updated to version 0.0.3 with previous version 0.0.2 dated 2020-02-20

Title: Forecast Verification for Extreme Events
Description: An index measuring the amount of information brought by forecasts for extreme events, subject to calibration, is computed. This index is originally designed for weather or climate forecasts, but it may be used in other forecasting contexts. This is the implementation of the index in Taillardat et al. (2019) <arXiv:1905.04022>.
Author: Maxime Taillardat [aut, cre]
Maintainer: Maxime Taillardat <maxime.taillardat@meteo.fr>

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Package anyflights updated to version 0.3.2 with previous version 0.3.1 dated 2020-10-22

Title: Query 'nycflights13'-Like Air Travel Data for Given Years and Airports
Description: Supplies a set of functions to query air travel data for user- specified years and airports. Datasets include on-time flights, airlines, airports, planes, and weather.
Author: Simon P. Couch [aut, cre], Hadley Wickham [ctb], Jay Lee [ctb], Dennis Irorere [ctb]
Maintainer: Simon P. Couch <simonpatrickcouch@gmail.com>

Diff between anyflights versions 0.3.1 dated 2020-10-22 and 0.3.2 dated 2021-11-24

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Package podcleaner (with last version 0.1.1) was removed from CRAN

Previous versions (as known to CRANberries) which should be available via the Archive link are:

2021-11-03 0.1.1

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Package mapi updated to version 1.0.4 with previous version 1.0.3 dated 2021-10-30

Title: Mapping Averaged Pairwise Information
Description: Mapping Averaged Pairwise Information (MAPI) is an exploratory method providing graphical representations summarizing the spatial variation of pairwise metrics (eg. distance, similarity coefficient, ...) computed between georeferenced samples.
Author: Sylvain Piry [aut, cre] (<https://orcid.org/0000-0002-7717-7555>), Thomas Campolunghi [aut], Florent Cestier [aut], Karine Berthier [aut] (<https://orcid.org/0000-0002-2260-7968>)
Maintainer: Sylvain Piry <sylvain.piry@inrae.fr>

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Package sparta updated to version 0.8.2 with previous version 0.8.1.1 dated 2021-09-30

Title: Sparse Tables
Description: Fast Multiplication and Marginalization of Sparse Tables.
Author: Mads Lindskou [aut, cre]
Maintainer: Mads Lindskou <mads@math.aau.dk>

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Package ggh4x updated to version 0.2.1 with previous version 0.2.0 dated 2021-08-21

Title: Hacks for 'ggplot2'
Description: A 'ggplot2' extension that does a variety of little helpful things. The package extends 'ggplot2' facets through customisation, by setting individual scales per panel, resizing panels and providing nested facets. Also allows multiple colour and fill scales per plot. Also hosts a smaller collection of stats, geoms and axis guides.
Author: Teun van den Brand [aut, cre] (<https://orcid.org/0000-0002-9335-7468>)
Maintainer: Teun van den Brand <tahvdbrand@gmail.com>

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New package downscale with initial version 4.2-0
Package: downscale
Title: Downscaling Species Occupancy
Version: 4.2-0
Date: 2021-11-24
Author: Charles Marsh [aut, cre]
Maintainer: Charles Marsh <charliem2003@gmail.com>
Description: Uses species occupancy at coarse grain sizes to predict species occupancy at fine grain sizes. Ten models are provided to fit and extrapolate the occupancy-area relationship, as well as methods for preparing atlas data for modelling. See Marsh et. al. (2018) <doi:10.18637/jss.v086.c03>.
License: GPL-2
Depends: raster (>= 2.4-20), R (>= 3.0.0)
Imports: cubature (>= 1.1-2), graphics, grDevices, methods, minpack.lm (>= 1.1-9), Rmpfr (>= 0.5-7), sp (>= 1.2-0), stats
Suggests: rgeos, rgdal, rgbif (>= 0.9.2), knitr, rmarkdown, bookdown
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2021-11-24 11:20:45 UTC; charlie
Repository: CRAN
Date/Publication: 2021-11-24 13:10:06 UTC

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Package bamlss updated to version 1.1-6 with previous version 1.1-5 dated 2021-09-21

Title: Bayesian Additive Models for Location, Scale, and Shape (and Beyond)
Description: Infrastructure for estimating probabilistic distributional regression models in a Bayesian framework. The distribution parameters may capture location, scale, shape, etc. and every parameter may depend on complex additive terms (fixed, random, smooth, spatial, etc.) similar to a generalized additive model. The conceptual and computational framework is introduced in Umlauf, Klein, Zeileis (2019) <doi:10.1080/10618600.2017.1407325> and the R package in Umlauf, Klein, Simon, Zeileis (2021) <doi:10.18637/jss.v100.i04>.
Author: Nikolaus Umlauf [aut, cre] (<https://orcid.org/0000-0003-2160-9803>), Nadja Klein [aut] (<https://orcid.org/0000-0002-5072-5347>), Achim Zeileis [aut] (<https://orcid.org/0000-0003-0918-3766>), Meike Koehler [ctb], Thorsten Simon [aut] (<https://orcid.org/0000-0002-3778-7738>), Stanislaus Stadlmann [ctb]
Maintainer: Nikolaus Umlauf <Nikolaus.Umlauf@uibk.ac.at>

Diff between bamlss versions 1.1-5 dated 2021-09-21 and 1.1-6 dated 2021-11-24

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Package SpATS updated to version 1.0-16 with previous version 1.0-15 dated 2021-07-06

Title: Spatial Analysis of Field Trials with Splines
Description: Analysis of field trial experiments by modelling spatial trends using two-dimensional Penalised spline (P-spline) models.
Author: Maria Xose Rodriguez-Alvarez [aut, cre], Martin Boer [aut], Paul Eilers [aut], Fred van Eeuwijk [ctb]
Maintainer: Maria Xose Rodriguez-Alvarez <mxrodriguez@uvigo.es>

Diff between SpATS versions 1.0-15 dated 2021-07-06 and 1.0-16 dated 2021-11-24

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More information about SpATS at CRAN
Permanent link

Package rgoogleads updated to version 0.4.1 with previous version 0.4.0 dated 2021-11-16

Title: Loading Data from 'Google Ads API'
Description: Interface for loading data from 'Google Ads API', see <https://developers.google.com/google-ads/api/docs/start>. Package provide function for authorization and loading reports.
Author: Alexey Seleznev [aut, cre] (<https://orcid.org/0000-0003-0410-7385>), Netpeak [cph]
Maintainer: Alexey Seleznev <selesnow@gmail.com>

Diff between rgoogleads versions 0.4.0 dated 2021-11-16 and 0.4.1 dated 2021-11-24

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Permanent link

Package POSetR updated to version 1.0.4 with previous version 1.0.3 dated 2021-03-20

Title: Partially Ordered Sets in R
Description: Provides a set of basic tools for generating, analyzing, summarizing and visualizing finite partially ordered sets. In particular, it implements flexible and very efficient algorithms for the extraction of linear extensions and for the computation of mutual ranking probabilities and other user-defined functionals, over them. The package is meant as a computationally efficient "engine", for the implementation of data analysis procedures, on systems of multidimensional ordinal indicators and partially ordered data, in the spirit of Fattore, M. (2016) "Partially ordered sets and the measurement of multidimensional ordinal deprivation", Social Indicators Research <DOI:10.1007/s11205-015-1059-6>, and Fattore M. and Arcagni, A. (2018) "A reduced posetic approach to the measurement of multidimensional ordinal deprivation", Social Indicators Research <DOI:10.1007/s11205-016-1501-4>.
Author: Alberto Arcagni [aut, cre], Alessandro Avellone [aut], Marco Fattore [aut]
Maintainer: Alberto Arcagni <alberto.arcagni@uniroma1.it>

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Permanent link

Package mice updated to version 3.14.0 with previous version 3.13.0 dated 2021-01-27

Title: Multivariate Imputation by Chained Equations
Description: Multiple imputation using Fully Conditional Specification (FCS) implemented by the MICE algorithm as described in Van Buuren and Groothuis-Oudshoorn (2011) <doi:10.18637/jss.v045.i03>. Each variable has its own imputation model. Built-in imputation models are provided for continuous data (predictive mean matching, normal), binary data (logistic regression), unordered categorical data (polytomous logistic regression) and ordered categorical data (proportional odds). MICE can also impute continuous two-level data (normal model, pan, second-level variables). Passive imputation can be used to maintain consistency between variables. Various diagnostic plots are available to inspect the quality of the imputations.
Author: Stef van Buuren [aut, cre], Karin Groothuis-Oudshoorn [aut], Gerko Vink [ctb], Rianne Schouten [ctb], Alexander Robitzsch [ctb], Patrick Rockenschaub [ctb], Lisa Doove [ctb], Shahab Jolani [ctb], Margarita Moreno-Betancur [ctb], Ian White [ctb], Philipp Gaffert [ctb], Florian Meinfelder [ctb], Bernie Gray [ctb], Vincent Arel-Bundock [ctb], Mingyang Cai [ctb], Thom Volker [ctb], Edoardo Costantini [ctb], Caspar van Lissa [ctb]
Maintainer: Stef van Buuren <stef.vanbuuren@tno.nl>

Diff between mice versions 3.13.0 dated 2021-01-27 and 3.14.0 dated 2021-11-24

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More information about mice at CRAN
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Package doolkit updated to version 1.0.1 with previous version 1.0.0 dated 2021-11-03

Title: Exploration of Dental Surface Topography
Description: Tools for exploring the topography of 3d triangle meshes. The functions were developed with dental surfaces in mind, but could be applied to any triangle mesh of class 'mesh3d'. More specifically, 'doolkit' allows to isolate the border of a mesh, or a subpart of the mesh using the polygon networks method; crop a mesh; compute basic descriptors (elevation, orientation, footprint area); compute slope, angularity and relief index (Ungar and Williamson (2000) <https://palaeo-electronica.org/2000_1/gorilla/issue1_00.htm>; Boyer (2008) <doi:10.1016/j.jhevol.2008.08.002>), inclination and occlusal relief index or gamma (Guy et al. (2013) <doi:10.1371/journal.pone.0066142>), OPC (Evans et al. (2007) <doi:10.1038/nature05433>), OPCR (Wilson et al. (2012) <doi:10.1038/nature10880>), DNE (Bunn et al. (2011) <doi:10.1002/ajpa.21489>; Pampush et al. (2016) <doi:10.1007/s10914-016-9326-0>), form factor (Horton (1932) <doi:10.1029/TR013i001p00350>), basin elongation (Schum (1956) <doi:10.1130/0016-7606(1956)67[597:EODSAS]2.0.CO;2>), lemniscate ratio (Chorley et al; (1957) <doi:10.2475/ajs.255.2.138>), enamel-dentine distance (Guy et al. (2015) <doi:10.1371/journal.pone.0138802>; Thiery et al. (2017) <doi:10.3389/fphys.2017.00524>), absolute crown strength (Schwartz et al. (2020) <doi:10.1098/rsbl.2019.0671>), relief rate (Thiery et al. (2019) <doi:10.1002/ajpa.23916>) and area-relative curvature; draw cumulative profiles of a topographic variable; and map a variable over a 3d triangle mesh.
Author: Ghislain Thiery [aut, cre], Franck Guy [aut], Vincent Lazzari [aut]
Maintainer: Ghislain Thiery <ghislain.thiery@ntymail.com>

Diff between doolkit versions 1.0.0 dated 2021-11-03 and 1.0.1 dated 2021-11-24

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Package sweater updated to version 0.1.2 with previous version 0.1.1 dated 2021-11-22

Title: Speedy Word Embedding Association Test and Extras Using R
Description: Conduct various tests for evaluating implicit biases in word embeddings: Word Embedding Association Test (Caliskan et al., 2017), <doi:10.1126/science.aal4230>, Relative Norm Distance (Garg et al., 2018), <doi:10.1073/pnas.1720347115>, Mean Average Cosine Similarity (Mazini et al., 2019) <arXiv:1904.04047>, SemAxis (An et al., 2018) <arXiv:1806.05521>, and Relative Negative Sentiment Bias (Sweeney & Najafian, 2019) <doi:10.18653/v1/P19-1162>.
Author: Chung-hong Chan [aut, cre] (<https://orcid.org/0000-0002-6232-7530>)
Maintainer: Chung-hong Chan <chainsawtiney@gmail.com>

Diff between sweater versions 0.1.1 dated 2021-11-22 and 0.1.2 dated 2021-11-24

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Package gestate updated to version 1.5.0 with previous version 1.4.0 dated 2020-02-20

Title: Generalised Survival Trial Assessment Tool Environment
Description: Provides tools to assist planning and monitoring of time-to-event trials under complicated censoring assumptions and/or non-proportional hazards. There are three main components: The first is analytic calculation of predicted time-to-event trial properties, providing estimates of expected hazard ratio, event numbers and power under different analysis methods. The second is simulation, allowing stochastic estimation of these same properties. Thirdly, it provides parametric event prediction using blinded trial data, including creation of prediction intervals. Methods are based upon numerical integration and a flexible object-orientated structure for defining event, censoring and recruitment distributions (Curves).
Author: James Bell [aut, cre], Jasmin Ruehl [ctb]
Maintainer: James Bell <james.bell.ext@boehringer-ingelheim.com>

Diff between gestate versions 1.4.0 dated 2020-02-20 and 1.5.0 dated 2021-11-24

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Package gbmt updated to version 0.1.2 with previous version 0.1.1 dated 2021-11-23

Title: Group-Based Multivariate Trajectory Modeling
Description: Estimation and analysis of group-based multivariate trajectory models (Nagin, 2018 <doi:10.1177/0962280216673085>). The package implements an Expectation-Maximization (EM) algorithm allowing unbalanced panel and missing values, and provides several functionalities for prediction and graphical representation.
Author: Alessandro Magrini
Maintainer: Alessandro Magrini <alessandro.magrini@unifi.it>

Diff between gbmt versions 0.1.1 dated 2021-11-23 and 0.1.2 dated 2021-11-24

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New package antaresViz with initial version 0.17
Package: antaresViz
Title: Antares Visualizations
Version: 0.17
Description: Visualize results generated by Antares, a powerful open source software developed by RTE to simulate and study electric power systems (more information about 'Antares' here: <https://github.com/AntaresSimulatorTeam/Antares_Simulator>). This package provides functions that create interactive charts to help 'Antares' users visually explore the results of their simulations.
URL: https://github.com/rte-antares-rpackage/antaresViz
BugReports: https://github.com/rte-antares-rpackage/antaresViz/issues
License: GPL (>= 2) | file LICENSE
Encoding: UTF-8
Depends: antaresRead (>= 2.2.9), antaresProcessing (>= 0.13.0), spMaps (>= 0.2)
Imports: dygraphs (>= 1.1.1.6), shiny (>= 0.13.0), plotly (>= 4.5.6), htmltools, htmlwidgets (>= 0.7.0), manipulateWidget (>= 0.10.0), leaflet (>= 1.1.0), sp, rgeos, raster, webshot, data.table, methods, lubridate, geojsonio, graphics, stats, leaflet.minicharts (>= 0.5.3), assertthat, rAmCharts, utils
Suggests: testthat, covr, rhdf5 (>= 2.20.2), ggplot2, hexbin, knitr, visNetwork, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2021-11-24 08:27:08 UTC; BenoitThieurmel
Author: Veronique Bachelier [aut, cre], Jalal-Edine Zawam [aut], Francois Guillem [aut], Benoit Thieurmel [aut], Titouan Robert [aut], Paul Plessiez [aut], Baptiste Seguinot [ctb], RTE [cph]
Maintainer: Veronique Bachelier <veronique.bachelier@rte-france.com>
Repository: CRAN
Date/Publication: 2021-11-24 09:20:02 UTC

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Package terra updated to version 1.4-22 with previous version 1.4-20 dated 2021-11-16

Title: Spatial Data Analysis
Description: Methods for spatial data analysis with raster and vector data. Raster methods allow for low-level data manipulation as well as high-level global, local, zonal, and focal computation. The predict and interpolate methods facilitate the use of regression type (interpolation, machine learning) models for spatial prediction, including with satellite remote sensing data. Processing of very large files is supported. See the manual and tutorials on <https://rspatial.org/terra/> to get started. 'terra' is very similar to the 'raster' package; but 'terra' can do more, is easier to use, and it is faster.
Author: Robert J. Hijmans [cre, aut] (<https://orcid.org/0000-0001-5872-2872>), Roger Bivand [ctb] (<https://orcid.org/0000-0003-2392-6140>), Karl Forner [ctb], Jeroen Ooms [ctb] (<https://orcid.org/0000-0002-4035-0289>), Edzer Pebesma [ctb] (<https://orcid.org/0000-0001-8049-7069>)
Maintainer: Robert J. Hijmans <r.hijmans@gmail.com>

Diff between terra versions 1.4-20 dated 2021-11-16 and 1.4-22 dated 2021-11-24

 DESCRIPTION                |    8 -
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 NAMESPACE                  |    2 
 NEWS.md                    |   31 ++++
 R/Agenerics.R              |    3 
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 R/coerce.R                 |  157 +++++++++++++++++++++++
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 R/lapp.R                   |   71 +++++++++-
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 man/wrap.Rd                |    2 
 src/RcppFunctions.cpp      |    3 
 src/distRaster.cpp         |    2 
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 src/gdal_algs.cpp          |   74 ++++-------
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 src/spatBase.cpp           |    2 
 src/spatDataframe.cpp      |    6 
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 46 files changed, 922 insertions(+), 270 deletions(-)

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New package survival666 with initial version 0.1
Package: survival666
Version: 0.1
Title: Eliminate the Influence of Co-Expression Genes on Target Genes
Description: Functions can be used for batch survival analysis, but not only for it. Most importantly, it can verify any P-value calculated according to the gene expression level and eliminate the influence of co-expression genes.
Depends: R (>= 3.3)
Imports: survival, survminer, utils, stats, ggplot2
Suggests: tidyverse, magrittr, testthat (>= 3.0.0)
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
NeedsCompilation: no
Packaged: 2021-11-24 05:03:07 UTC; 86157
Author: Honglu Zhang [aut, cre, cph] (<https://orcid.org/0000-0002-4844-5004>), Qi Zhang [ctb] (<https://orcid.org/0000-0012-0199-6968>), Xiaodong Pei [ctb] (<https://orcid.org/0000-0002-7897-4505>), Jiawen Guo [ctb] (<https://orcid.org/0000-0002-0331-5038>), Enpeng Liu [ctb] (<https://orcid.org/0000-0002-5549-957X>)
Maintainer: Honglu Zhang <15738817548@163.com>
Repository: CRAN
Date/Publication: 2021-11-24 08:50:02 UTC

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New package sumSome with initial version 1.1.0
Package: sumSome
Title: Permutation True Discovery Guarantee by Sum-Based Tests
Version: 1.1.0
Date: 2021-11-23
Author: Anna Vesely
Maintainer: Anna Vesely <anna.vesely@phd.unipd.it>
Description: It allows to quickly perform permutation-based closed testing by sum-based global tests, and construct lower confidence bounds for the TDP, simultaneously over all subsets of hypotheses. As a main feature, it produces simultaneous lower confidence bounds for the proportion of active voxels in different clusters for fMRI cluster analysis. Details may be found in Vesely, Finos, and Goeman (2020) <arXiv:2102.11759>.
License: GPL (>= 2)
Imports: Rcpp (>= 1.0.5), pARI, ARIbrain, RNifti
LinkingTo: Rcpp
Encoding: UTF-8
Language: en-US
BugReports: https://github.com/annavesely/sumSome/issues
URL: https://github.com/annavesely/sumSome
NeedsCompilation: yes
Packaged: 2021-11-23 20:28:01 UTC; annav
Repository: CRAN
Date/Publication: 2021-11-24 08:10:11 UTC

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New package rflsgen with initial version 0.1.0
Package: rflsgen
Title: R Interface to the 'Flsgen' Neutral Landscape Generator with Targets on Landscape Indices
Version: 0.1.0
Author: Dimitri Justeau-Allaire
Maintainer: Dimitri Justeau-Allaire <dimitri.justeau@gmail.com>
Description: Interface to the 'flsgen' neutral landscape generator <https://github.com/dimitri-justeau/flsgen>. It allows to - Generate fractal terrain; - Generate landscape structures satisfying user targets over landscape indices; - Generate landscape raster from landscape structures.
License: GPL-3
Encoding: UTF-8
Depends: rJava
Imports: raster, rgdal, checkmate, utils
SystemRequirements: Java
Suggests: testthat (>= 3.0.0)
NeedsCompilation: no
Packaged: 2021-11-24 00:54:39 UTC; djusteau
Repository: CRAN
Date/Publication: 2021-11-24 08:20:02 UTC

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New package responsePatterns with initial version 0.1.0
Package: responsePatterns
Title: Screening for Careless Responding Patterns
Version: 0.1.0
Description: Some survey participants tend to respond carelessly which complicates data analysis. This package provides functions that make it easier to explore responses and identify those that may be problematic.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Depends: R (>= 3.5.0)
Imports: graphics, grDevices, methods, stats, utils
Suggests: magrittr
NeedsCompilation: no
Packaged: 2021-11-23 01:55:43 UTC; 21252
Author: Tomas Rihacek [aut, cre] (<https://orcid.org/0000-0001-5893-9289>), Jaroslav Gottfried [aut] (<https://orcid.org/0000-0002-6076-1632>)
Maintainer: Tomas Rihacek <rihacek@fss.muni.cz>
Repository: CRAN
Date/Publication: 2021-11-24 08:30:02 UTC

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Package gld updated to version 2.6.3 with previous version 2.6.2 dated 2020-01-08

Title: Estimation and Use of the Generalised (Tukey) Lambda Distribution
Description: The generalised lambda distribution, or Tukey lambda distribution, provides a wide variety of shapes with one functional form. This package provides random numbers, quantiles, probabilities, densities and density quantiles for four different types of the distribution, the FKML (Freimer et al 1988), RS (Ramberg and Schmeiser 1974), GPD (van Staden and Loots 2009) and FM5 - see documentation for details. It provides the density function, distribution function, and Quantile-Quantile plots. It implements a variety of estimation methods for the distribution, including diagnostic plots. Estimation methods include the starship (all 4 types), method of L-Moments for the GPD and FKML types, and a number of methods for only the FKML type. These include maximum likelihood, maximum product of spacings, Titterington's method, Moments, Trimmed L-Moments and Distributional Least Absolutes.
Author: Robert King [aut, cre] (<https://orcid.org/0000-0001-7495-6599>), Benjamin Dean [aut], Sigbert Klinke [aut], Paul van Staden [aut] (<https://orcid.org/0000-0002-5710-5984>)
Maintainer: Robert King <Robert.King.newcastle@gmail.com>

Diff between gld versions 2.6.2 dated 2020-01-08 and 2.6.3 dated 2021-11-24

 Changelog                            |  388 ++++++++++++------------
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 NAMESPACE                            |   28 -
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 R/BetaLambdaLambda.R                 |   50 +--
 R/CheckParameters.R                  |  404 ++++++++++++-------------
 R/e1071wrap.R                        |   52 +--
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 R/fit.gpd.R                          |  362 +++++++++++-----------
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New package GenericML with initial version 0.1.0
Package: GenericML
Title: Generic Machine Learning Inference
Version: 0.1.0
Author: Max Welz [aut, cre] (<https://orcid.org/0000-0003-2945-1860>), Andreas Alfons [aut] (<https://orcid.org/0000-0002-2513-3788>), Mert Demirer [aut], Victor Chernozhukov [aut]
Maintainer: Max Welz <welz@ese.eur.nl>
Description: Generic Machine Learning Inference on heterogeneous treatment effects in randomized experiments as proposed in Chernozhukov, Demirer, Duflo and Fernández-Val (2020) <arXiv:1712.04802>. This package's workhorse is the 'mlr3' framework of Lang et al. (2019) <doi:10.21105/joss.01903>, which enables the specification of a wide variety of machine learners. The main functionality, GenericML(), runs Algorithm 1 in Chernozhukov, Demirer, Duflo and Fernández-Val (2020) <arXiv:1712.04802> for a suite of user-specified machine learners. All steps in the algorithm are customizable via setup functions. Methods for printing and plotting are available for objects returned by GenericML(). Parallel computing is supported.
License: GPL (>= 3)
Encoding: UTF-8
URL: https://github.com/mwelz/GenericML/
BugReports: https://github.com/mwelz/GenericML/issues/
Depends: ggplot2, mlr3, mlr3learners
Imports: sandwich, lmtest, splitstackshape, stats, parallel
Suggests: glmnet, ranger, rpart, e1071, testthat (>= 3.0.0)
NeedsCompilation: no
Packaged: 2021-11-23 18:47:02 UTC; mwelz
Repository: CRAN
Date/Publication: 2021-11-24 08:10:18 UTC

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Package skewMLRM updated to version 1.6 with previous version 1.5 dated 2021-11-23

Title: Estimation for Scale-Shape Mixtures of Skew-Normal Distributions
Description: Provide data generation and estimation tools for the multivariate scale mixtures of normal presented in Lange and Sinsheimer (1993) <doi:10.2307/1390698>, the multivariate scale mixtures of skew-normal presented in Zeller, Lachos and Vilca (2011) <doi:10.1080/02664760903406504>, the multivariate skew scale mixtures of normal presented in Louredo, Zeller and Ferreira (2021) <doi:10.1007/s13571-021-00257-y> and the multivariate scale mixtures of skew-normal-Cauchy presented in Kahrari et al. (2020) <doi:10.1080/03610918.2020.1804582>.
Author: Clecio Ferreira [aut], Diego Gallardo [aut, cre], Camila Zeller [aut]
Maintainer: Diego Gallardo <diego.gallardo@uda.cl>

Diff between skewMLRM versions 1.5 dated 2021-11-23 and 1.6 dated 2021-11-24

 DESCRIPTION          |    8 
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 MD5                  |   12 -
 NAMESPACE            |    3 
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 R/mbackcrit.R        |  528 ++++++++++++++++++++++++++++++++-------------------
 R/vcov.skewMLRM.R    |only
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 8 files changed, 356 insertions(+), 201 deletions(-)

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Package rKolada (with last version 0.2.0) was removed from CRAN

Previous versions (as known to CRANberries) which should be available via the Archive link are:

2021-03-22 0.2.0

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Package metabolighteR (with last version 0.1.2) was removed from CRAN

Previous versions (as known to CRANberries) which should be available via the Archive link are:

2021-04-05 0.1.2

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Package subtee (with last version 1.0.0) was removed from CRAN

Previous versions (as known to CRANberries) which should be available via the Archive link are:

2021-10-25 1.0.0
2021-02-25 0.3-7.1

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Package sassy updated to version 1.0.6 with previous version 1.0.5 dated 2021-08-07

Title: Makes 'R' Easier for 'SAS®' Programmers
Description: A meta-package that aims to make 'R' easier for 'SAS®' programmers. This set of packages brings many familiar concepts to 'R', including data libraries, data dictionaries, formats and format catalogs, a data step, and a traceable log. The 'flagship' package is a reporting package that can output in text, rich text, 'PDF' and 'HTML' file formats.
Author: David J. Bosak
Maintainer: David Bosak <dbosak01@gmail.com>

Diff between sassy versions 1.0.5 dated 2021-08-07 and 1.0.6 dated 2021-11-24

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Package Rmixmod updated to version 2.1.6 with previous version 2.1.5 dated 2020-06-14

Title: Classification with Mixture Modelling
Description: Interface of 'MIXMOD' software for supervised, unsupervised and semi-supervised classification with mixture modelling.
Author: Florent Langrognet [aut], Remi Lebret [aut], Christian Poli [aut], Serge Iovleff [aut], Benjamin Auder [aut], Parmeet Bhatia [ctb], Anwuli Echenim [ctb], Serge Iovleff [aut], Christophe Biernacki [ctb], Gilles Celeux [ctb], Gerard Govaert [ctb], Quentin Grimonprez [cre]
Maintainer: Quentin Grimonprez <quentingrim@yahoo.fr>

Diff between Rmixmod versions 2.1.5 dated 2020-06-14 and 2.1.6 dated 2021-11-24

 DESCRIPTION                                           |   18 +++----
 MD5                                                   |    8 +--
 configure.ac                                          |    5 +-
 src/mixmod/Kernel/Parameter/GaussianEDDAParameter.cpp |    2 
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 5 files changed, 18 insertions(+), 56 deletions(-)

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Package quanteda.textstats updated to version 0.95 with previous version 0.94.1 dated 2021-05-11

Title: Textual Statistics for the Quantitative Analysis of Textual Data
Description: Textual statistics functions formerly in the 'quanteda' package. Textual statistics for characterizing and comparing textual data. Includes functions for measuring term and document frequency, the co-occurrence of words, similarity and distance between features and documents, feature entropy, keyword occurrence, readability, and lexical diversity. These functions extend the 'quanteda' package and are specially designed for sparse textual data.
Author: Kenneth Benoit [cre, aut, cph] (<https://orcid.org/0000-0002-0797-564X>), Kohei Watanabe [aut] (<https://orcid.org/0000-0001-6519-5265>), Haiyan Wang [aut] (<https://orcid.org/0000-0003-4992-4311>), Jiong Wei Lua [aut], Jouni Kuha [aut] (<https://orcid.org/0000-0002-1156-8465>), European Research Council [fnd] (ERC-2011-StG 283794-QUANTESS)
Maintainer: Kenneth Benoit <kbenoit@lse.ac.uk>

Diff between quanteda.textstats versions 0.94.1 dated 2021-05-11 and 0.95 dated 2021-11-24

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Package nanotime updated to version 0.3.4 with previous version 0.3.3 dated 2021-08-09

Title: Nanosecond-Resolution Time Support for R
Description: Full 64-bit resolution date and time functionality with nanosecond granularity is provided, with easy transition to and from the standard 'POSIXct' type. Three additional classes offer interval, period and duration functionality for nanosecond-resolution timestamps.
Author: Dirk Eddelbuettel and Leonardo Silvestri
Maintainer: Dirk Eddelbuettel <edd@debian.org>

Diff between nanotime versions 0.3.3 dated 2021-08-09 and 0.3.4 dated 2021-11-24

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 man/nanoival.Rd                    |    3 
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 21 files changed, 249 insertions(+), 162 deletions(-)

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Package DPQ updated to version 0.5-0 with previous version 0.4-4 dated 2021-05-27

Title: Density, Probability, Quantile ('DPQ') Computations
Description: Computations for approximations and alternatives for the 'DPQ' (Density (pdf), Probability (cdf) and Quantile) functions for probability distributions in R. Primary focus is on (central and non-central) beta, gamma and related distributions such as the chi-squared, F, and t. -- This is for the use of researchers in these numerical approximation implementations, notably for my own use in order to improve standard R pbeta(), qgamma(), ..., etc: {'"dpq"'-functions}.
Author: Martin Maechler [aut, cre] (<https://orcid.org/0000-0002-8685-9910>), Morten Welinder [ctb] (pgamma C code, see PR#7307, Jan. 2005; further pdhyper()), Wolfgang Viechtbauer [ctb] (dtWV(), 2002), Ross Ihaka [ctb] (src/qchisq_appr.c), Marius Hofert [ctb] (lsum(), lssum()), R-core [ctb] (src/{dpq.h, algdiv.c, pnchisq.c, bd0.c}), R Foundation [cph] (src/qchisq-appr.c)
Maintainer: Martin Maechler <maechler@stat.math.ethz.ch>

Diff between DPQ versions 0.4-4 dated 2021-05-27 and 0.5-0 dated 2021-11-24

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